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SNPs3DSearch

Fetches disease associated genes from the SNPs3D database.

Version 1.0
Bundle microarray
Categories Annotation
Authors Sirkku Karinen (sirkku.karinen@helsinki.fi)
Issue tracker View/Report issues
Requires sirkku.jar (jar)
Source files component.xml
Usage Example with default values

Inputs

Name Type Mandatory Description
queryFeatures CSV Mandatory One column list of features (with a header).

Outputs

Name Type Description
associatedGenes CSV List of genes associated with the features. Output has the following columns: Feature, Gene Symbol, Band, Candidate SNPs, confidence score(SD) and Keywords

Parameters

Name Type Default Description
threshold float 0.0 Least value for confidence score (SD). Results with score below the threshold are filtered out. By default, all values are accepted as the least possible score is 0.

Test cases

Test case Parameters IN
queryFeatures
OUT
associatedGenes
case1 properties queryFeatures associatedGenes

threshold = 0,

case2 properties queryFeatures associatedGenes

threshold = 0.5,


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